Microbial Diversity in Rainwater Harvesting Systems: Towards an Understanding of Tank Water Quality

Total Page:16

File Type:pdf, Size:1020Kb

Microbial Diversity in Rainwater Harvesting Systems: Towards an Understanding of Tank Water Quality Microbial Diversity and the Quality of Roof-harvested Rainwater C.A. Evans, P.J. Coombes, R.H. Dunstan, T.L. Harrison, A. Martin, K. Pigott, J.N. Harris School of Environmental and Life Sciences University of Newcastle Australia AreAre nonnon--pathogenicpathogenic bacteriabacteria significant?significant? 1. The ‘treatment train’ effect • Apparent improvements to the microbial and chemical quality of water with passage through the collection system. Contaminated run-off ‘Treatment train’ INLET Improved water quality OUTLET AreAre nonnon--pathogenicpathogenic bacteriabacteria significant?significant? 1. The ‘treatment train’ effect • Apparent improvements to the microbial and chemical quality of water with passage through the collection system. 2. Environmental bacteria comprise majority of organisms present in rainwater tanks. •HPC >>> coliform counts - (orders of magnitude) • Bacterial composition influenced by wind patterns WindWind direction/velocitydirection/velocity && HPCHPC 6000 (r2 = 0.98, p<0.001) 5000 ) L 4000 m / u f N c 3000 C ( S 2000 2 HP (r = 0.85, p<0.03) 1000 0 02468 Wind velocity (m/sec) Contaminated run-off ‘Treatment train’ INLET Biofilm formation Nutrient cycling Chemical remediation Competitive exclusion of pathogens Improved water quality OUTLET OverviewOverview 1. Assessment of microbial diversity in 2 rainwater tanks. • Impact of hot water systems • Assessment of coliforms 2. Biofilm pilot studies • Biofilm development and the treatment train • In-vitro examination of Pb2+ uptake MicrobialMicrobial DiversityDiversity ofof 22 RainwaterRainwater TanksTanks • Urban tank – Located in Newcastle (160kM Nth of Sydney) – Duel 2.2kL galvanized iron tanks – Mains water top-up system – Hot water service set at 60°C • Rural tank – Located at Gulgong (250kM inland of Newcastle) – 10kL ‘aquaplate’ tank – Hot water service set at 50°C. Table 1: Plate count and diversity summary Tank Urban Rural Sample type Cold Hot Cold Hot Total no. of species identified 64 20 49 39 mean no. species/sample 23 ± 3.4 8 ± 1.2 16 ± 2.3 14 ± 4.3 Mean plate count (cfu/mL) 366 ± 153 17 ± 2.6 2263 ± 1070 94 ± 31 Table 1: Plate count and diversity summary Tank Urban Rural Sample type Cold Hot Cold Hot Total no. of species identified 64 20 49 39 mean no. species/sample 23 ± 3.4 8 ± 1.2 16 ± 2.3 14 ± 4.3 Mean plate count (cfu/mL) 366 ± 153 17 ± 2.6 2263 ± 1070 94 ± 31 Table 1: Plate count and diversity summary Tank Urban Rural Sample type Cold Hot Cold Hot Total no. of species identified 64 20 49 39 mean no. species/sample 23 ± 3.4 8 ± 1.2 16 ± 2.3 14 ± 4.3 Mean plate count (cfu/mL) 366 ± 153 17 ± 2.6 2263 ± 1070 94 ± 31 Table 1: Plate count and diversity summary Tank Urban Rural Sample type Cold Hot Cold Hot Total no. of species identified 64 20 49 39 mean no. species/sample 23 ± 3.4 8 ± 1.2 16 ± 2.3 14 ± 4.3 Mean plate count (cfu/mL) 366 ± 153 17 ± 2.6 2263 ± 1070 94 ± 31 Table 1: Plate count and diversity summary Tank Urban Rural Sample type Cold Hot Cold Hot Total no. of species identified 64 20 49 39 mean no. species/sample 23 ± 3.4 8 ± 1.2 16 ± 2.3 14 ± 4.3 Mean plate count (cfu/mL) 366 ± 153 17 ± 2.6 2263 ± 1070 94 ± 31 Table 1: Plate count and diversity summary Tank Urban Rural Sample type Cold Hot Cold Hot Total no. of species identified 64 20 49 39 mean no. species/sample 23 ± 3.4 8 ± 1.2 16 ± 2.3 14 ± 4.3 Mean plate count (cfu/mL) 366 ± 153 17 ± 2.6 2263 ± 1070 94 ± 31 Table 1: Plate count and diversity summary Tank Urban Rural Sample type Cold Hot Cold Hot Total no. of species identified 64 20 49 39 mean no. species/sample 23 ± 3.4 8 ± 1.2 16 ± 2.3 14 ± 4.3 Mean plate count (cfu/mL) 366 ± 153 17 ± 2.6 2263 ± 1070 94 ± 31 Fig. 2: % composition of gram negative and gram positive bacteria in samples from rainwater tanks. 100% 90% 80% n io 70% it s 60% o p G+ve 50% m o G-ve 40% c % 30% 20% 10% 0% Ncle(cold) Gulg(cold) Ncle(hot) Gulg(hot) Sample type Fig. 1: on average counts of most abundant genera present. Profiles of the Newcastle and Gulgong tanks based ) l 450 400 350 300 250 Avge count (cfu/m 200 150 100 50 0 Pseudomonas sp. Serratia sp. Delftia sp. Janthinobacterium sp. Yersinia sp. Bacillus sp. Unidentified Fungi Gu Nc lg Herbaspirillum sp. le Sphingomonas sp. Faecal indicator presence and abundance relative to total plate count Sample type COLD HOT Presence Avge % of Presence Avge % of (% of samples) plate count (% of samples) plate count E.coli 50 0.06 ± 0.03 0 0 Enterococci 23 0.05 ± 0.03 28 0.62 ± 0.41 Faecal col. 77 0.52 ± 0.27 28 0.62 ± 0.41 Total col. 100 3.77 ± 2.08 43 3.36 ± 2.21 BiofilmsBiofilms andand thethe treatmenttreatment traintrain Location: Newcastle on east coast of Australia (approx. 160kM Nth of Sydney) Tank Biofilm development Comment A (G.I.) Advanced heavy slime layer with extensive clumping B (Plastic) Moderate uniform slime layer around interior Table 3: Variation in bacterial counts between the tank water column and tap outlet of tanks A and B. Tank Sample type Bacterial count E.coli HPC (cfu/100ml) (cfu/mL) A Tank water column 48 610 Tap outlet 29 390 Improvement 34% 36% B Tank water column 70 200 Tap outlet 60 160 Improvement 14% 20% Table 3: Variation in bacterial counts between the tank water column and tap outlet of 2 tanks. Tank Sample type Bacterial count E.coli HPC (cfu/100ml) (cfu/mL) A Tank water column 48 610 Tap outlet 29 390 Improvement 34% 36% B Tank water column 70 200 Tap outlet 60 160 Improvement 14% 20% PbPb2+ uptakeuptake byby inin--vitrovitro cultivatedcultivated biofilmbiofilm • E.coli biofilms cultivated in wells of perspex tissue culture plates for 72 hours. • Incubation broth replaced with sterile milli-Q water spiked with Pb2+ (100ppb). •Pb2+ determined by ICP-MS at time = 0, 5, 10 and 20 hours. Pb2+ uptake by in-vitro cultivated biofilm 110 100 90 ppb) ( . 80 Biofilm nc o 70 Control c d a 60 Le 50 40 0 5 10 15 20 25 Time (hrs) ConclusionsConclusions • Rainwater tanks harbour a wide diversity of microbial species. • Species composition may vary considerably between tanks at different locations. • Species composition varies temporally at any given site. • Minimal evidence of faecal contamination. • Hot water systems deliver water of quality suitable for bathing. • Biofilms have capacity to chemically remediate water. Phylum Class Order Family Genus Sphingomonadales Sphingomonadaceae Novosphingobium Bradyrhizobiaceae Afipia Porphyrobacter α Rhizobiales Sphingomonas Methylobacteriaceae Methylobacterium Caulobacterales Caulobacteraceae Caulobacter Burkholderiaceae Burkholderia Comomonadaceae Acidovorax Comomonas Burkholderiales Oxalobacteriaceae Duganella Delftia Massilia Polaromonas Naxibacter Variovorax Herbaspirillum Ralstoniaceae Janthinobacterium Ralstonia Proteobacteria β Nesseriales Nesseriaceae Aquaspirillum Aquitalea Chromobacterium Rhodocyclales Rhodocyclaceae Dechloromonas Iodobacter Microvirgula Enterobacteriales Enterobacteriaceae Citrobacter Enterobacter Aeromonadales Aeromonadaceae Aeromonas Erwinia Escherichia Chromatiales Chromatiaceae Rheinheimera Hafnia γ Klebsiella Moraxellaceae Acinetobacter Leclercia Pseudomonadales Moraxella Obesumbacterium Pseudomonadaceae Pseudomonas Pantoea Proteus Xanthomonadales Xanthomonadaceae Luteibacter Rahnella Stenotrophomonas Raoultella Pseudoxanthomonas Serratia Clostridium Clostridia Clostridiales Clostridiaceae Yersinia Bacillaceae Bacillus Exiguobacterium Listeriaceae Listeria Bacillales Planococcaceae Planococcus Firmicutes Planomicrobium Paenibacillaceae Brevibacillus Sporasarcina Paenibacillus Staphylococcaceae Staphylococcus Bacilli Aerococcaceae Aerococcus Carnobacteriaceae Carnobacterium Desemzia Corynebacteriaceae Corynebacterium Lactobacillales Enterococcaceae Enterococcus Microbacteriaceae Frigoribacterium Microbacterium Streptococcaceae Lactococcus Micrococcaceae Arthrobacter Leucobacter Gordoniaceae Gordonia Micrococcus Actinobacteria Actinobacteria Actinomycetales Mycobacteriaceae Mycobacterium Nocardiaceae Rhodococcus Streptomycetaceae Streptomyces Flavobacteria Flavobacteroidales Flavobacteriaceae Chryseobacterium Flavobacterium Bacteroidetes Flexibacteriaceae Flectobacillus Sphingobacteria Sphingobacteriales Hymenobacter Sphingobacteriaceae Sphingobacterium.
Recommended publications
  • Biodiversity of Psychrotrophic Microbes and Their Biotechnological Applications
    Journal of Applied Biology & Biotechnology Vol. 7(04), pp. 99-108, July-August, 2019 Available online at http://www.jabonline.in DOI: 10.7324/JABB.2019.70415 Biodiversity of psychrotrophic microbes and their biotechnological applications Ajar Nath Yadav1*, Neelam Yadav2, Shashwati Ghosh Sachan3, Anil Kumar Saxena4 1Department of Biotechnology, Akal College of Agriculture, Eternal University, Baru Sahib, Himachal Pradesh, India, 2Gopi Nath P. G. College, Veer Bahadur Singh Purvanchal University, Uttar Pradesh, India, 3Department of Bio-Engineering, Birla Institute of Technology, Ranchi, Jharkhand, India, 4ICAR-National Bureau of Agriculturally Important Microorganisms, Mau, Uttar Pradesh, India ARTICLE INFO ABSTRACT Article history: The extreme cold environments harbor novel psychrotrophic microbes. The psychrotrophic microbes have been reported Received on: December 02, 2018 Accepted on: January 16, 2019 as plant growth promoters and biocontrol agents for sustainable agriculture, in industry as cold-adapted hydrolytic enzymes and in medicine as secondary metabolites and pharmaceutical important bioactive compounds. Inoculation Available online: July 04, 2019 with psychrotrophic/psychrotolerant strains significantly enhanced root/shoot biomass and nutrients uptake as compared to non-bacterized control. The psychrotrophic microbes play important role in alleviation of cold stress in plant growing Key words: at high hill and low temperature and conditions. The psychrotrophic microbes have been reported from worldwide Adaptation, Biodiversity,
    [Show full text]
  • University of Cincinnati
    UNIVERSITY OF CINCINNATI Date: February 22, 2007 I, _ Samuel Lee Hayes________________________________________, hereby submit this work as part of the requirements for the degree of: Doctor of Philosophy in: Biological Sciences It is entitled: Response of Mammalian Models to Exposure of Bacteria from the Genus Aeromonas Evaluated using Transcriptional Analysis and Conjectures on Disease Mechanisms This work and its defense approved by: Chair: _Brian K. Kinkle _Dennis W. Grogan _Richard D. Karp _Mario Medvedovic _Stephen J. Vesper Response of Mammalian Models to Exposure of Bacteria from the Genus Aeromonas Evaluated using Transcriptional Analysis and Conjectures on Disease Mechanisms A dissertation submitted to the Division of Graduate Studies and Research of the University of Cincinnati in partial fulfillment of the requirements for the degree of DOCTOR OF PHILOSOPHY in the Department of Biological Sciences of the College of Arts and Sciences 2007 by Samuel Lee Hayes B.S. Ohio University, 1978 M.S. University of Cincinnati, 1986 Committee Chair: Dr. Brian K. Kinkle Abstract The genus Aeromonas contains virulent bacteria implicated in waterborne disease, as well as avirulent strains. One of my research objectives was to identify and characterize host- pathogen relationships specific to Aeromonas spp. Aeromonas virulence was assessed using changes in host mRNA expression after infecting cell cultures and live animals. Messenger RNA extracts were hybridized to murine genomic microarrays. Initially, these model systems were infected with two virulent A. hydrophila strains, causing up-regulation of over 200 and 50 genes in animal and cell culture tissues, respectively. Twenty-six genes were common between the two model systems. The live animal model was used to define virulence for many Aeromonas spp.
    [Show full text]
  • Fatty Acid Diets: Regulation of Gut Microbiota Composition and Obesity and Its Related Metabolic Dysbiosis
    International Journal of Molecular Sciences Review Fatty Acid Diets: Regulation of Gut Microbiota Composition and Obesity and Its Related Metabolic Dysbiosis David Johane Machate 1, Priscila Silva Figueiredo 2 , Gabriela Marcelino 2 , Rita de Cássia Avellaneda Guimarães 2,*, Priscila Aiko Hiane 2 , Danielle Bogo 2, Verônica Assalin Zorgetto Pinheiro 2, Lincoln Carlos Silva de Oliveira 3 and Arnildo Pott 1 1 Graduate Program in Biotechnology and Biodiversity in the Central-West Region of Brazil, Federal University of Mato Grosso do Sul, Campo Grande 79079-900, Brazil; [email protected] (D.J.M.); [email protected] (A.P.) 2 Graduate Program in Health and Development in the Central-West Region of Brazil, Federal University of Mato Grosso do Sul, Campo Grande 79079-900, Brazil; pri.fi[email protected] (P.S.F.); [email protected] (G.M.); [email protected] (P.A.H.); [email protected] (D.B.); [email protected] (V.A.Z.P.) 3 Chemistry Institute, Federal University of Mato Grosso do Sul, Campo Grande 79079-900, Brazil; [email protected] * Correspondence: [email protected]; Tel.: +55-67-3345-7416 Received: 9 March 2020; Accepted: 27 March 2020; Published: 8 June 2020 Abstract: Long-term high-fat dietary intake plays a crucial role in the composition of gut microbiota in animal models and human subjects, which affect directly short-chain fatty acid (SCFA) production and host health. This review aims to highlight the interplay of fatty acid (FA) intake and gut microbiota composition and its interaction with hosts in health promotion and obesity prevention and its related metabolic dysbiosis.
    [Show full text]
  • Delineation of Aeromonas Hydrophila Pathotypes by Dectection of Putative Virulence Factors Using Polymerase Chain Reaction and N
    View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by DigitalCommons@Kennesaw State University Kennesaw State University DigitalCommons@Kennesaw State University Master of Science in Integrative Biology Theses Biology & Physics Summer 7-20-2015 Delineation of Aeromonas hydrophila Pathotypes by Dectection of Putative Virulence Factors using Polymerase Chain Reaction and Nematode Challenge Assay John Metz Kennesaw State University, [email protected] Follow this and additional works at: http://digitalcommons.kennesaw.edu/integrbiol_etd Part of the Integrative Biology Commons Recommended Citation Metz, John, "Delineation of Aeromonas hydrophila Pathotypes by Dectection of Putative Virulence Factors using Polymerase Chain Reaction and Nematode Challenge Assay" (2015). Master of Science in Integrative Biology Theses. Paper 7. This Thesis is brought to you for free and open access by the Biology & Physics at DigitalCommons@Kennesaw State University. It has been accepted for inclusion in Master of Science in Integrative Biology Theses by an authorized administrator of DigitalCommons@Kennesaw State University. For more information, please contact [email protected]. Delineation of Aeromonas hydrophila Pathotypes by Detection of Putative Virulence Factors using Polymerase Chain Reaction and Nematode Challenge Assay John Michael Metz Submitted in partial fulfillment of the requirements for the Master of Science Degree in Integrative Biology Thesis Advisor: Donald J. McGarey, Ph.D Department of Molecular and Cellular Biology Kennesaw State University ABSTRACT Aeromonas hydrophila is a Gram-negative, bacterial pathogen of humans and other vertebrates. Human diseases caused by A. hydrophila range from mild gastroenteritis to soft tissue infections including cellulitis and acute necrotizing fasciitis. When seen in fish it causes dermal ulcers and fatal septicemia, which are detrimental to aquaculture stocks and has major economic impact to the industry.
    [Show full text]
  • Product Sheet Info
    Product Information Sheet for HM-289 Facklamia sp., Strain HGF4 Incubation: Temperature: 37°C Catalog No. HM-289 Atmosphere: Aerobic Propagation: 1. Keep vial frozen until ready for use, then thaw. For research use only. Not for human use. 2. Transfer the entire thawed aliquot into a single tube of broth. Contributor: 3. Use several drops of the suspension to inoculate an Thomas M. Schmidt, Professor, Department of Microbiology agar slant and/or plate. and Molecular Genetics, Michigan State University, East 4. Incubate the tube, slant and/or plate at 37°C for 48 to Lansing, Michigan, USA 168 hours. Manufacturer: Citation: BEI Resources Acknowledgment for publications should read “The following reagent was obtained through BEI Resources, NIAID, NIH as Product Description: part of the Human Microbiome Project: Facklamia sp., Strain Bacteria Classification: Aerococcaceae, Facklamia HGF4, HM-289.” Species: Facklamia sp. Strain: HGF4 Biosafety Level: 2 Original Source: Facklamia sp., strain HGF4 is a human Appropriate safety procedures should always be used with gastrointestinal isolate.1 this material. Laboratory safety is discussed in the following Comments: Facklamia sp., strain HGF4 (HMP ID 9411) is a publication: U.S. Department of Health and Human Services, reference genome for The Human Microbiome Project Public Health Service, Centers for Disease Control and (HMP). HMP is an initiative to identify and characterize Prevention, and National Institutes of Health. Biosafety in human microbial flora. The complete genome of Facklamia Microbiological and Biomedical Laboratories. 5th ed. sp., strain HGF4 is currently being sequenced at the J. Washington, DC: U.S. Government Printing Office, 2009; see Craig Venter Institute.
    [Show full text]
  • Aerococcus Viridans: a Rare Pathogen Causing Urinary Tract Infection Microbiology Section Microbiology
    DOI: 10.7860/JCDR/2017/23997.9229 Case Series Aerococcus Viridans: A Rare Pathogen Causing Urinary Tract Infection Microbiology Section Microbiology BALVINDER MOHAN1, KAMRAN ZAMAN2, NAVEEN ANAND3, NEELAM TANEJA4 ABSTRACT Aerococci are Gram-positive cocci with colony morphology similar to viridans streptococci. Most often these isolates in clinical samples are misidentified and considered insignificant. However, with the use newer techniques like Matrix-Assisted Laser Desorption Ionization Time-of-Flight Mass-Spectrometry (MALDI-TOF MS), aerococci have been recognized as significant human pathogens capable of causing a diverse spectrum of infections. Among the different species of aerococci, Aerococcus urinae is the most common agent causing Urinary Tract Infection (UTI) followed by A. sanguinocola. Aerococcus viridans (A. viridans) have been reported rarely in urinary tract infections. The antimicrobial resistance in aerococci in terms of its intrinsic resistance and evolving resistance to penicillin and vancomycin has raised the concern for better understanding of this pathogen. We recently encountered two cases of nosocomial UTI caused by A. viridans which are being reported here. Keywords: Aerococci, Nosocomial, Vancomycin UTI form a major component of the most commonly encountered The present case reports have been retrospectively reviewed and bacterial infections in routine clinical practice. Most of these reported and it did not require any institutional ethics committee infections are caused by members of the Enterobacteriaceae family; approval. The patients involved in this report have given their written in particular, Escherichia coli and the Gram-positive cocci such as informed consent authorizing use and disclosure of their protected Staphylococcus spp and Enterococcus spp [1]. In routine clinical health information.
    [Show full text]
  • Supplementary Information for Microbial Electrochemical Systems Outperform Fixed-Bed Biofilters for Cleaning-Up Urban Wastewater
    Electronic Supplementary Material (ESI) for Environmental Science: Water Research & Technology. This journal is © The Royal Society of Chemistry 2016 Supplementary information for Microbial Electrochemical Systems outperform fixed-bed biofilters for cleaning-up urban wastewater AUTHORS: Arantxa Aguirre-Sierraa, Tristano Bacchetti De Gregorisb, Antonio Berná, Juan José Salasc, Carlos Aragónc, Abraham Esteve-Núñezab* Fig.1S Total nitrogen (A), ammonia (B) and nitrate (C) influent and effluent average values of the coke and the gravel biofilters. Error bars represent 95% confidence interval. Fig. 2S Influent and effluent COD (A) and BOD5 (B) average values of the hybrid biofilter and the hybrid polarized biofilter. Error bars represent 95% confidence interval. Fig. 3S Redox potential measured in the coke and the gravel biofilters Fig. 4S Rarefaction curves calculated for each sample based on the OTU computations. Fig. 5S Correspondence analysis biplot of classes’ distribution from pyrosequencing analysis. Fig. 6S. Relative abundance of classes of the category ‘other’ at class level. Table 1S Influent pre-treated wastewater and effluents characteristics. Averages ± SD HRT (d) 4.0 3.4 1.7 0.8 0.5 Influent COD (mg L-1) 246 ± 114 330 ± 107 457 ± 92 318 ± 143 393 ± 101 -1 BOD5 (mg L ) 136 ± 86 235 ± 36 268 ± 81 176 ± 127 213 ± 112 TN (mg L-1) 45.0 ± 17.4 60.6 ± 7.5 57.7 ± 3.9 43.7 ± 16.5 54.8 ± 10.1 -1 NH4-N (mg L ) 32.7 ± 18.7 51.6 ± 6.5 49.0 ± 2.3 36.6 ± 15.9 47.0 ± 8.8 -1 NO3-N (mg L ) 2.3 ± 3.6 1.0 ± 1.6 0.8 ± 0.6 1.5 ± 2.0 0.9 ± 0.6 TP (mg
    [Show full text]
  • Comparative Analysis of the Composition Of
    Comparative Analysis of the Composition of Intestinal Bacterial Communities in Dastarcus helophoroides Fed Different Diets Author(s): Wei-Wei Wang, Cai He, Jun Cui, Hai-Dong Wang, and Meng-Lou Li Source: Journal of Insect Science, 14(111):1-13. 2014. Published By: Entomological Society of America DOI: http://dx.doi.org/10.1673/031.014.111 URL: http://www.bioone.org/doi/full/10.1673/031.014.111 BioOne (www.bioone.org) is a nonprofit, online aggregation of core research in the biological, ecological, and environmental sciences. BioOne provides a sustainable online platform for over 170 journals and books published by nonprofit societies, associations, museums, institutions, and presses. Your use of this PDF, the BioOne Web site, and all posted and associated content indicates your acceptance of BioOne’s Terms of Use, available at www.bioone.org/page/terms_of_use. Usage of BioOne content is strictly limited to personal, educational, and non-commercial use. Commercial inquiries or rights and permissions requests should be directed to the individual publisher as copyright holder. BioOne sees sustainable scholarly publishing as an inherently collaborative enterprise connecting authors, nonprofit publishers, academic institutions, research libraries, and research funders in the common goal of maximizing access to critical research. Journal of Insect Science: Vol. 14 | Article 111 Wang et al. Comparative analysis of the composition of intestinal bacterial communities in Dastarcus helophoroides fed different diets Wei-Wei Wang,1a Cai He,2b Jun Cui,1c Hai-Dong Wang,1d and Meng-Lou Li1e* 1Laboratory of Forestry Pests Biological Control, College of Forestry, Northwest A&F University, Yangling, Shaanxi, 712100, P.
    [Show full text]
  • Table S4. Phylogenetic Distribution of Bacterial and Archaea Genomes in Groups A, B, C, D, and X
    Table S4. Phylogenetic distribution of bacterial and archaea genomes in groups A, B, C, D, and X. Group A a: Total number of genomes in the taxon b: Number of group A genomes in the taxon c: Percentage of group A genomes in the taxon a b c cellular organisms 5007 2974 59.4 |__ Bacteria 4769 2935 61.5 | |__ Proteobacteria 1854 1570 84.7 | | |__ Gammaproteobacteria 711 631 88.7 | | | |__ Enterobacterales 112 97 86.6 | | | | |__ Enterobacteriaceae 41 32 78.0 | | | | | |__ unclassified Enterobacteriaceae 13 7 53.8 | | | | |__ Erwiniaceae 30 28 93.3 | | | | | |__ Erwinia 10 10 100.0 | | | | | |__ Buchnera 8 8 100.0 | | | | | | |__ Buchnera aphidicola 8 8 100.0 | | | | | |__ Pantoea 8 8 100.0 | | | | |__ Yersiniaceae 14 14 100.0 | | | | | |__ Serratia 8 8 100.0 | | | | |__ Morganellaceae 13 10 76.9 | | | | |__ Pectobacteriaceae 8 8 100.0 | | | |__ Alteromonadales 94 94 100.0 | | | | |__ Alteromonadaceae 34 34 100.0 | | | | | |__ Marinobacter 12 12 100.0 | | | | |__ Shewanellaceae 17 17 100.0 | | | | | |__ Shewanella 17 17 100.0 | | | | |__ Pseudoalteromonadaceae 16 16 100.0 | | | | | |__ Pseudoalteromonas 15 15 100.0 | | | | |__ Idiomarinaceae 9 9 100.0 | | | | | |__ Idiomarina 9 9 100.0 | | | | |__ Colwelliaceae 6 6 100.0 | | | |__ Pseudomonadales 81 81 100.0 | | | | |__ Moraxellaceae 41 41 100.0 | | | | | |__ Acinetobacter 25 25 100.0 | | | | | |__ Psychrobacter 8 8 100.0 | | | | | |__ Moraxella 6 6 100.0 | | | | |__ Pseudomonadaceae 40 40 100.0 | | | | | |__ Pseudomonas 38 38 100.0 | | | |__ Oceanospirillales 73 72 98.6 | | | | |__ Oceanospirillaceae
    [Show full text]
  • Biores 09 1 316 Zain
    PEER-REVIEWED ARTICLE bioresources.com Bacterial Community Structure and Biochemical Changes Associated With Composting of Lignocellulosic Oil Palm Empty Fruit Bunch Mohd Huzairi Mohd Zainudin,a Mohd Ali Hassan,a,* Umi Kalsom Md Shah,a Norhani Abdullah,b,c Mitsunori Tokura,d Hisashi Yasueda,d Yoshihito Shirai,e Kenji Sakai,f and Azhari Samsu Baharuddin g Bacterial community structure and biochemical changes during the composting of lignocellulosic oil palm empty bunch (EFB) and palm oil mill effluent (POME) anaerobic sludge were studied by examining the succession of the bacterial community and its association with changes in lignocellulosic components by denaturing gradient gel electrophoresis (DGGE) and the 16S rRNA gene clone library. During composting, a major reduction in cellulose after 10 days from 50% to 19% and the carbon content from 44% to 27% towards the end of the 40-day composting period were observed. The C/N ratio also decreased. A drastic change in the bacterial community structure and diversity throughout the composting process was clearly observed using PCR- DGGE banding patterns. The bacterial community drastically shifted between the thermophilic and maturing stages. 16s rRNA clones belonging to the genera Bacillus, Exiguobacterium, Desemzia, and Planococcus were the dominant groups throughout composting. The species closely related to Solibacillus silvestris were found to be major contributors to changes in the lignocellulosic component. Clones identified as Thermobacillus xylanilyticus, Brachybacterium faecium,
    [Show full text]
  • Multi-Product Lactic Acid Bacteria Fermentations: a Review
    fermentation Review Multi-Product Lactic Acid Bacteria Fermentations: A Review José Aníbal Mora-Villalobos 1 ,Jéssica Montero-Zamora 1, Natalia Barboza 2,3, Carolina Rojas-Garbanzo 3, Jessie Usaga 3, Mauricio Redondo-Solano 4, Linda Schroedter 5, Agata Olszewska-Widdrat 5 and José Pablo López-Gómez 5,* 1 National Center for Biotechnological Innovations of Costa Rica (CENIBiot), National Center of High Technology (CeNAT), San Jose 1174-1200, Costa Rica; [email protected] (J.A.M.-V.); [email protected] (J.M.-Z.) 2 Food Technology Department, University of Costa Rica (UCR), San Jose 11501-2060, Costa Rica; [email protected] 3 National Center for Food Science and Technology (CITA), University of Costa Rica (UCR), San Jose 11501-2060, Costa Rica; [email protected] (C.R.-G.); [email protected] (J.U.) 4 Research Center in Tropical Diseases (CIET) and Food Microbiology Section, Microbiology Faculty, University of Costa Rica (UCR), San Jose 11501-2060, Costa Rica; [email protected] 5 Bioengineering Department, Leibniz Institute for Agricultural Engineering and Bioeconomy (ATB), 14469 Potsdam, Germany; [email protected] (L.S.); [email protected] (A.O.-W.) * Correspondence: [email protected]; Tel.: +49-(0331)-5699-857 Received: 15 December 2019; Accepted: 4 February 2020; Published: 10 February 2020 Abstract: Industrial biotechnology is a continuously expanding field focused on the application of microorganisms to produce chemicals using renewable sources as substrates. Currently, an increasing interest in new versatile processes, able to utilize a variety of substrates to obtain diverse products, can be observed.
    [Show full text]
  • An Update on the Genus Aeromonas: Taxonomy, Epidemiology, and Pathogenicity
    microorganisms Review An Update on the Genus Aeromonas: Taxonomy, Epidemiology, and Pathogenicity Ana Fernández-Bravo and Maria José Figueras * Unit of Microbiology, Department of Basic Health Sciences, Faculty of Medicine and Health Sciences, IISPV, University Rovira i Virgili, 43201 Reus, Spain; [email protected] * Correspondence: mariajose.fi[email protected]; Tel.: +34-97-775-9321; Fax: +34-97-775-9322 Received: 31 October 2019; Accepted: 14 January 2020; Published: 17 January 2020 Abstract: The genus Aeromonas belongs to the Aeromonadaceae family and comprises a group of Gram-negative bacteria widely distributed in aquatic environments, with some species able to cause disease in humans, fish, and other aquatic animals. However, bacteria of this genus are isolated from many other habitats, environments, and food products. The taxonomy of this genus is complex when phenotypic identification methods are used because such methods might not correctly identify all the species. On the other hand, molecular methods have proven very reliable, such as using the sequences of concatenated housekeeping genes like gyrB and rpoD or comparing the genomes with the type strains using a genomic index, such as the average nucleotide identity (ANI) or in silico DNA–DNA hybridization (isDDH). So far, 36 species have been described in the genus Aeromonas of which at least 19 are considered emerging pathogens to humans, causing a broad spectrum of infections. Having said that, when classifying 1852 strains that have been reported in various recent clinical cases, 95.4% were identified as only four species: Aeromonas caviae (37.26%), Aeromonas dhakensis (23.49%), Aeromonas veronii (21.54%), and Aeromonas hydrophila (13.07%).
    [Show full text]